Literature DB >> 16307924

Destabilization of the P site codon-anticodon helix results from movement of tRNA into the P/E hybrid state within the ribosome.

Kevin G McGarry1, Sarah E Walker, Huanyu Wang, Kurt Fredrick.   

Abstract

Retention of the reading frame in ribosomal complexes after single-round translocation depends on the acylation state of the tRNA. When tRNA lacking a peptidyl group is translocated to the P site, the mRNA slips to allow re-pairing of the tRNA with a nearby out-of-frame codon. Here, we show that this ribosomal activity results from movement of tRNA into the P/E hybrid state. Slippage of mRNA is suppressed by 3' truncation of the translocated tRNA, increased MgCl2 concentration, and mutation C2394A of the 50S E site, and each of these conditions inhibits P/E-state formation. Mutation G2252U of the 50S P site stimulates mRNA slippage, suggesting that decreased affinity of tRNA for the P/P state also destabilizes mRNA in the complex. The effects of G2252U are suppressed by C2394A, further implicating the P/E state in mRNA destabilization. This work uncovers a functional attribute of the P/E state crucial for understanding translation.

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Year:  2005        PMID: 16307924      PMCID: PMC2631382          DOI: 10.1016/j.molcel.2005.10.007

Source DB:  PubMed          Journal:  Mol Cell        ISSN: 1097-2765            Impact factor:   17.970


  42 in total

1.  Novel roles for classical factors at the interface between translation termination and initiation.

Authors:  R Karimi; M Y Pavlov; R H Buckingham; M Ehrenberg
Journal:  Mol Cell       Date:  1999-05       Impact factor: 17.970

2.  Induced fit in initial selection and proofreading of aminoacyl-tRNA on the ribosome.

Authors:  T Pape; W Wintermeyer; M Rodnina
Journal:  EMBO J       Date:  1999-07-01       Impact factor: 11.598

3.  A 16S rRNA-tRNA product containing a nucleotide phototrimer and specific for tRNA in the P/E hybrid state in the Escherichia coli ribosome.

Authors:  Wayne Huggins; Paul Wollenzien
Journal:  Nucleic Acids Res       Date:  2004-12-14       Impact factor: 16.971

4.  Sequence of steps in ribosome recycling as defined by kinetic analysis.

Authors:  Frank Peske; Marina V Rodnina; Wolfgang Wintermeyer
Journal:  Mol Cell       Date:  2005-05-13       Impact factor: 17.970

5.  Mechanism for the disassembly of the posttermination complex inferred from cryo-EM studies.

Authors:  Ning Gao; Andrey V Zavialov; Wen Li; Jayati Sengupta; Mikel Valle; Richard P Gursky; Måns Ehrenberg; Joachim Frank
Journal:  Mol Cell       Date:  2005-06-10       Impact factor: 17.970

Review 6.  Models of the elongation cycle: an evaluation.

Authors:  C M Spahn; K H Nierhaus
Journal:  Biol Chem       Date:  1998-07       Impact factor: 3.915

7.  Compilation of tRNA sequences and sequences of tRNA genes.

Authors:  M Sprinzl; C Horn; M Brown; A Ioudovitch; S Steinberg
Journal:  Nucleic Acids Res       Date:  1998-01-01       Impact factor: 16.971

8.  The "allosteric three-site model" of elongation cannot be confirmed in a well-defined ribosome system from Escherichia coli.

Authors:  Y P Semenkov; M V Rodnina; W Wintermeyer
Journal:  Proc Natl Acad Sci U S A       Date:  1996-10-29       Impact factor: 11.205

9.  Effect of buffer conditions on the position of tRNA on the 70 S ribosome as visualized by cryoelectron microscopy.

Authors:  R K Agrawal; P Penczek; R A Grassucci; N Burkhardt; K H Nierhaus; J Frank
Journal:  J Biol Chem       Date:  1999-03-26       Impact factor: 5.157

10.  Complete kinetic mechanism of elongation factor Tu-dependent binding of aminoacyl-tRNA to the A site of the E. coli ribosome.

Authors:  T Pape; W Wintermeyer; M V Rodnina
Journal:  EMBO J       Date:  1998-12-15       Impact factor: 11.598

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  24 in total

1.  Reverse translocation of tRNA in the ribosome.

Authors:  Shinichiro Shoji; Sarah E Walker; Kurt Fredrick
Journal:  Mol Cell       Date:  2006-12-28       Impact factor: 17.970

2.  Recognition and positioning of mRNA in the ribosome by tRNAs with expanded anticodons.

Authors:  Sarah E Walker; Kurt Fredrick
Journal:  J Mol Biol       Date:  2006-05-17       Impact factor: 5.469

3.  Structural basis for mRNA and tRNA positioning on the ribosome.

Authors:  Veysel Berk; Wen Zhang; Raj D Pai; Jamie H D Cate; Jamie H Doudna Cate
Journal:  Proc Natl Acad Sci U S A       Date:  2006-10-12       Impact factor: 11.205

4.  Elongation factor G stabilizes the hybrid-state conformation of the 70S ribosome.

Authors:  P Clint Spiegel; Dmitri N Ermolenko; Harry F Noller
Journal:  RNA       Date:  2007-07-13       Impact factor: 4.942

5.  Preparation and evaluation of acylated tRNAs.

Authors:  Sarah E Walker; Kurt Fredrick
Journal:  Methods       Date:  2008-02       Impact factor: 3.608

6.  tRNA-mRNA mimicry drives translation initiation from a viral IRES.

Authors:  David A Costantino; Jennifer S Pfingsten; Robert P Rambo; Jeffrey S Kieft
Journal:  Nat Struct Mol Biol       Date:  2007-12-23       Impact factor: 15.369

7.  Role of hybrid tRNA-binding states in ribosomal translocation.

Authors:  Sarah E Walker; Shinichiro Shoji; Dongli Pan; Barry S Cooperman; Kurt Fredrick
Journal:  Proc Natl Acad Sci U S A       Date:  2008-06-30       Impact factor: 11.205

8.  Transfer RNA in the hybrid P/E state: correlating molecular dynamics simulations with cryo-EM data.

Authors:  Wen Li; Joachim Frank
Journal:  Proc Natl Acad Sci U S A       Date:  2007-10-09       Impact factor: 11.205

9.  IF2 and unique features of initiator tRNAfMet help establish the translational reading frame.

Authors:  Bappaditya Roy; Qi Liu; Shinichiro Shoji; Kurt Fredrick
Journal:  RNA Biol       Date:  2017-11-13       Impact factor: 4.652

10.  Contribution of ribosomal residues to P-site tRNA binding.

Authors:  Shinichiro Shoji; Nimo M Abdi; Ralf Bundschuh; Kurt Fredrick
Journal:  Nucleic Acids Res       Date:  2009-05-05       Impact factor: 16.971

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